miRNA display CGI


Results 1 - 20 of 45 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
13960 5' -57.2 NC_003521.1 + 119035 0.74 0.53796
Target:  5'- cGGauagGGCGGGCggcGUCGGGGUGCuGGAg -3'
miRNA:   3'- -CCa---CUGCCCGaa-CAGCCUCGCGuCUU- -5'
13960 5' -57.2 NC_003521.1 + 221892 0.68 0.862352
Target:  5'- cGUGugGGGCggauUGcCGGcGCGCGGc- -3'
miRNA:   3'- cCACugCCCGa---ACaGCCuCGCGUCuu -5'
13960 5' -57.2 NC_003521.1 + 117487 0.68 0.862352
Target:  5'- cGGcGACGGGCcUGUCcggcGGGGCGUAc-- -3'
miRNA:   3'- -CCaCUGCCCGaACAG----CCUCGCGUcuu -5'
13960 5' -57.2 NC_003521.1 + 214434 0.67 0.883522
Target:  5'- gGGUGACGGuGCUgcagaaguugaUGaCGGcGGCGCuGAAg -3'
miRNA:   3'- -CCACUGCC-CGA-----------ACaGCC-UCGCGuCUU- -5'
13960 5' -57.2 NC_003521.1 + 69420 0.66 0.909396
Target:  5'- cGGUGACGGcGCgcaccaccacggUGGAGuCGCAGGu -3'
miRNA:   3'- -CCACUGCC-CGaaca--------GCCUC-GCGUCUu -5'
13960 5' -57.2 NC_003521.1 + 170529 0.66 0.914583
Target:  5'- uGUGACGGGga---CGGGGgGCAGGAg -3'
miRNA:   3'- cCACUGCCCgaacaGCCUCgCGUCUU- -5'
13960 5' -57.2 NC_003521.1 + 238468 0.66 0.920135
Target:  5'- --cGGCGGGCggGgCGGAGaCGCGGc- -3'
miRNA:   3'- ccaCUGCCCGaaCaGCCUC-GCGUCuu -5'
13960 5' -57.2 NC_003521.1 + 213530 0.66 0.925463
Target:  5'- aGGaUGGCGGGCagcUCGGAGCacCAGGu -3'
miRNA:   3'- -CC-ACUGCCCGaacAGCCUCGc-GUCUu -5'
13960 5' -57.2 NC_003521.1 + 103557 0.66 0.930567
Target:  5'- gGGaUGACgGGGCccagGUCGcccGCGCAGAAg -3'
miRNA:   3'- -CC-ACUG-CCCGaa--CAGCcu-CGCGUCUU- -5'
13960 5' -57.2 NC_003521.1 + 58885 0.68 0.855653
Target:  5'- aGGUGGCGcGGCgaGUCGcagcccgucuccauGCGCAGGAu -3'
miRNA:   3'- -CCACUGC-CCGaaCAGCcu------------CGCGUCUU- -5'
13960 5' -57.2 NC_003521.1 + 115444 0.69 0.814921
Target:  5'- gGGUGACGGuGgUUGUgCGGAcggugguagugGUGCAGGGa -3'
miRNA:   3'- -CCACUGCC-CgAACA-GCCU-----------CGCGUCUU- -5'
13960 5' -57.2 NC_003521.1 + 193288 0.73 0.596515
Target:  5'- cGG-GACGGGC--GUCGGAgucgGCGCGGGGg -3'
miRNA:   3'- -CCaCUGCCCGaaCAGCCU----CGCGUCUU- -5'
13960 5' -57.2 NC_003521.1 + 64382 0.72 0.63612
Target:  5'- aGGUG-CGGGCgcGUCugcagaacguGGAGCGCGGGc -3'
miRNA:   3'- -CCACuGCCCGaaCAG----------CCUCGCGUCUu -5'
13960 5' -57.2 NC_003521.1 + 6366 0.72 0.665815
Target:  5'- --aGAgGGGCcgGUCGGGGuCGCGGAGg -3'
miRNA:   3'- ccaCUgCCCGaaCAGCCUC-GCGUCUU- -5'
13960 5' -57.2 NC_003521.1 + 202130 0.71 0.69528
Target:  5'- cGG-GACGGGCUUGUCuucggGGAugGCGCcGAGc -3'
miRNA:   3'- -CCaCUGCCCGAACAG-----CCU--CGCGuCUU- -5'
13960 5' -57.2 NC_003521.1 + 209572 0.7 0.752646
Target:  5'- cGGUGGCGGGg--GUCcgGGGGCGCAc-- -3'
miRNA:   3'- -CCACUGCCCgaaCAG--CCUCGCGUcuu -5'
13960 5' -57.2 NC_003521.1 + 133195 0.69 0.79779
Target:  5'- cGGcGAuCGGGaCgaccgcgGUCGGGGCGCGGGu -3'
miRNA:   3'- -CCaCU-GCCC-Gaa-----CAGCCUCGCGUCUu -5'
13960 5' -57.2 NC_003521.1 + 212891 0.69 0.805573
Target:  5'- gGGcGACGGGggUGUCGGuggacucgaggacGGCGCGGu- -3'
miRNA:   3'- -CCaCUGCCCgaACAGCC-------------UCGCGUCuu -5'
13960 5' -57.2 NC_003521.1 + 7801 0.69 0.814921
Target:  5'- --aGAUuacGGCgUGUCGGGGUGCAGAAc -3'
miRNA:   3'- ccaCUGc--CCGaACAGCCUCGCGUCUU- -5'
13960 5' -57.2 NC_003521.1 + 68745 0.66 0.930567
Target:  5'- gGGUGAgGGGCgg--CGGGuucuGaCGCAGAAa -3'
miRNA:   3'- -CCACUgCCCGaacaGCCU----C-GCGUCUU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.